Locus 1785

Sequence ID 3R_DroMel_CAF1
Location 5,114,274 – 5,114,394
Length 120
Max. P 0.970179
window2942

overview

Window 2

Location 5,114,274 – 5,114,394
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.31
Mean single sequence MFE -24.72
Consensus MFE -20.12
Energy contribution -20.92
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.31
Structure conservation index 0.81
SVM decision value 1.65
SVM RNA-class probability 0.970179
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5114274 120 + 27905053
CACAAAUUGGUUUAACGCUUAGGUGGCAAAAGCAACCGCCACCGCACAUCGUGCAUAAAUUACAAAUUAAAUGAAUGGACAAGCUGUUUCAACCCUGAAAACAAACAAAAACCGCAGCAA
........(((((...((((.((((((..........))))))((((...))))..........................))))(((((((....)).))))).....)))))....... ( -26.00)
>DroSec_CAF1 15906 119 + 1
CACAAAUUGGUUUAACGCUUAGGUGGCAAUGGCAACCGCCACCGCACAUCGUGCAUAAAUUACAAAUUAAAUG-GUGGACAAACAGUUUCAAACCUGAAAACAAACAAAAACCGCAGCAA
........(((((..((((..((((((...(....).))))))((((...))))..................)-))).........(((((....)))))........)))))....... ( -26.40)
>DroSim_CAF1 16440 119 + 1
CACAAAUUGGUUUAACGCUUAGGUGGCAAUGGCAACCGCCACCGCACAUCGUGCAUAAAUUACAAAUUAAAUG-GUGGACAAACAGUUUCAAACCUGAAAACAAACAAAAACCGCAGCAA
........(((((..((((..((((((...(....).))))))((((...))))..................)-))).........(((((....)))))........)))))....... ( -26.40)
>DroEre_CAF1 17250 119 + 1
CACAAAUUGGUUUAACGCUUAGGUGGCAAAACCAACCGCCACCGCACAUCGUGCAUAAAUUACAAAUUAAAUG-GUGGACAAACAGUUUCAACCCUGAAAACAAACAAAAACCGCAGCAA
........(((((..((((..((((((..........))))))((((...))))..................)-))).........(((((....)))))........)))))....... ( -24.80)
>DroYak_CAF1 17222 119 + 1
CGCAAAUUGGUUUAACGCUUAGGUGGCAAAACCAACCGACACCGCACAUCGUGCAUAAAUUACAAAUUAAAUG-GUGGACAAACAGUUUCAACCCGAAAAACAAACAAAAACCGCAGCAA
.((...(((((((..(((....)))...))))))).((.((((((((...)))).(((........)))...)-))).........((((.....)))).............))..)).. ( -20.00)
>consensus
CACAAAUUGGUUUAACGCUUAGGUGGCAAAAGCAACCGCCACCGCACAUCGUGCAUAAAUUACAAAUUAAAUG_GUGGACAAACAGUUUCAACCCUGAAAACAAACAAAAACCGCAGCAA
........(((((..(((...((((((..........))))))((((...))))....................))).........(((((....)))))........)))))....... (-20.12 = -20.92 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:28 2006